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Orally active aminopyridines as inhibitors of tetrameric fructose 1,6- bisphosphatase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VT5 PDB ENTRY 2VT5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 RESERVOIR: 0.1M HEPES, PH 7.0, 0.1 M AMMONIUM ACETATE, 12% PEG 3350.
Crystal Properties Matthews coefficient Solvent content 2.61 52.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.136 α = 90 b = 82.784 β = 90 c = 276.604 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 120 CCD MARRESEARCH MIRRORS 2007-05-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.06 142 90.8 0.15 8.39 5.97 87553 -10 0.226
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.06 2.19 51.6 0.39 3.45 3.42
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2VT5 2.1 29.48 83227 4326 96.23 0.24663 0.24405 0.29625 0.3012 RANDOM 25.749
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.64 -0.61 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.856 r_dihedral_angle_4_deg 16.943 r_dihedral_angle_3_deg 16.068 r_dihedral_angle_1_deg 6.013 r_scangle_it 2.441 r_scbond_it 1.609 r_angle_refined_deg 1.357 r_mcangle_it 1.01 r_mcbond_it 0.601 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.856 r_dihedral_angle_4_deg 16.943 r_dihedral_angle_3_deg 16.068 r_dihedral_angle_1_deg 6.013 r_scangle_it 2.441 r_scbond_it 1.609 r_angle_refined_deg 1.357 r_mcangle_it 1.01 r_mcbond_it 0.601 r_nbtor_refined 0.306 r_symmetry_hbond_refined 0.225 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.196 r_symmetry_vdw_refined 0.193 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9729 Nucleic Acid Atoms Solvent Atoms 1003 Heterogen Atoms 120
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling